1 | background
2 | questions
3 | approaches
4 | methods
5 | results
6 | future
7 | conclusions
Cercocarpus
March 1st, ’23
1 | background
2 | questions
3 | approaches
4 | methods
5 | results
6 | future
7 | conclusions
Cercocarpus
Jane Ogilvie (ecological fieldwork, design)
Emily J. Woodworth (pollen morphology, and microscopy)
Sophie Taddeo (geo-spatial, statistics)
Paul CaraDonna (little bees/big picture(s))
Jeremie Fant (all things molecular and tied together)
i.e. an in-house production.
Primary Roads
FQI calculated from AIM
## how do we sample the planet? - 1.4
Cirsium scariosum
Macroinvertebrates.org
Solidago spathulata & Megachile wheeleri, by A. Litz
Five Astragali
Rhododendron sp. Hengduan Mtns., by Qin Li
Do the number of sequence reads reflect the amount of biological material in a sample?
FPNW 2nd
DNA extracted from corbiculae loads
variable in size, but generally many tens of thousands of grains
USFWS
workflow
Corbiculae Sample
a single species
SPATIAL SUBSET PICTURE
tissue from Rocky Mountain Herbarium
hyb-seq
database
database
| Metric | Value | Metric | Value |
|---|---|---|---|
| Accuracy (Training) | 83.75 | F-Score | 0.84 |
| Accuracy (Test) | 84.00 | AUC | 0.92 |
| Recall | 81.03 | Concordance | 0.92 |
| True Neg. Rate | 86.97 | Discordance | 0.08 |
| Precision | 88.04 | Tied | 0.00 |
| ml | lm | |
|---|---|---|
| ensembles | 493 | 473 |
| true + | 362 | 286 |
| true - | 33 | 55 |
| false + | 64 | 41 |
| false - | 34 | 93 |
flower dates
flower dates
Species in Sequence DB
Three Initial Networks
| Condition | No. Class. | Prcnt. Class. | Total Seqs | Rank |
|---|---|---|---|---|
| A | 143 | 21.0 | 32.0 | Species |
| B | 205 | 30.1 | 10.5 | Species |
| C | 5 | 0.7 | 0.4 | Genus |
| G | 29 | 4.3 | 7.8 | Species |
| H | 280 | 41.2 | 47.9 | Genus |
| None met | 18 | 2.6 | 1.4 | Multiple |
Counted grains
promising
two super fantastic technicians for the field seasons I worked during school, made my life SO easy
find them funding and recruit them, and then give me a finders fee.
Employment: Yingying Xie, Josh Scholl, Sam Isham, Kelly McMillen, Kay Hajek, Linda Vance, Cassandra Owen, Ken Holsinger
Project: Nyree Zerega, Pat Herendeen, Hilary Noble, Zoe Diaz-Martinez, Angela McDonnell, Elena Loke, Ian Breckheimer, Ben Legler, Ernie Nelson, Charles (Rick) Williams, D. Knoke, L. Brummer, J. Boyd, C. Davidson, I. Gilman, M. Kirkpatrick, S. McCauley, J. Smith, K. Taylor, & C. Williams. David Giblin, Mare Nazaire, Sarah Burnett, Lauren Price, T.C.H. Cole, Eliot Gardner.